Sandbox TMV

Tobacco Mosaic Virus

spinqualitylabelsall models TMV coat protein 2tmv Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Caspar Carboxylates Two clusters of acidic amino acids are thought to be important for the disassembly of the helical structure of TMV. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis . Several carboxylates were identified including Glu50 and ASP77, which contact each other in the helical stack (look closely at the two subunits that overlap in this lockwasher complex), and a cluster of four acidic amino acids, GLU95, GLU97, GLU106 and GLU109, near the center of the ring. This section complements the article on Tobacco Mosaic Virus in the Molecule of the Month Series. See also Teaching Scenes, Tutorials, and Educators' Pages. Repeating Subunits Th repeating basic unit consists of 49 subunits which cover a section of 69 Å of height in three turns of the helix (= a rise of 23 Å per turn). A single strand of RNA is placed between the protein subunits at a distance of 40 Å from the outer diameter. The figure depicts one basic unit. Protein and RNA are shown in spacefill mode, RNA in white, the protein changing from red to blue along the helix. The uppermoust subunit is marked light brown. Each protein subunit covers three nucleotides of the RNA. Repeating Subunits of Helical Tobacco Mosaic Virus Publication Abstract from PubMed The structure of tobacco mosaic virus (TMV) has been determined by fiber diffraction methods at 2.9 A resolution, and refined by restrained least-squares to an R-factor of 0.096. Protein-nucleic acid interactions are clearly visible. The final model contains all of the non-hydrogen atoms of the RNA and the protein, 71 water molecules, and two calcium-binding sites. Viral disassembly is driven by electrostatic repulsions between the charges in two carboxyl-carboxylate pairs and a phosphate-carboxylate pair. The phosphate-carboxylate pair and at least one of the carboxyl-carboxylate pairs appear to be calcium-binding sites. Nucleotide specificity, enabling TMV to recognize its own RNA by a repeating pattern of guanine residues, is provided by two guanine-specific hydrogen bonds in one of the three base-binding sites. Visualization of protein-nucleic acid interactions in a virus. Refined structure of intact tobacco mosaic virus at 2.9 A resolution by X-ray fiber diffraction., Namba K, Pattanayek R, Stubbs G, J Mol Biol. 1989 Jul 20;208(2):307-25. PMID:2769760 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. About this Structure 2TMV is a 2 chains structure with sequences from Tobacco mosaic virus. The January 2009 RCSB PDB Molecule of the Month feature on Tobacco Mosaic Virus by David Goodsell is 10.2210/rcsb_pdb/mom_2009_1. Full crystallographic information is available from OCA.

3D structures of tobacco mosaic virus

Updated on 08-October-2013

2tmv, Teaching Scenes, Tutorials, and Educators' Pages – TMV coat protein + RNA - CryoEM
2tmv – TMV coat protein + RNA - fiber

References

Primary Reference
Visualization of protein-nucleic acid interactions in a virus. Refined structure of intact tobacco mosaic virus at 2.9 A resolution by X-ray fiber diffraction., Namba K, Pattanayek R, Stubbs G, J Mol Biol. 1989 Jul 20;208(2):307-25. PMID:2769760
Additional References

Created with the participation of Jaime Prilusky, Eran Hodis, David S. Goodsell.